Marker-trait association analysis of functional gene markers for provitamin A levels across diverse tropical yellow maize inbred lines

Table 8 Phenotypic variation explained (R ² ) by individual and combined effects of lcyE and crtRB1 alleles

Genotype combination*	No. of loci per genotype	No. of unique genotypes	R²**
Genotype combination*	No. of loci per genotype	No. of unique genotypes	lut	zeax	βcry	βcar	pva	tcar	βbr/αbr	βcar/βcry	βcar/zeax	βcar/all
1. lcyE:5′TE, SNP (216), 3′TE; +crtRB1: 5′TE, Indel4, 3′TE	6	34	0.68	0.42	0.44	0.83	0.71	0.38	0.52	0.89	0.77	0.77
2. lcyE: 5′TE, SNP (216), 3′TE	3	14	0.42	0.22	NS	0.24	0.23	0.24	0.30	0.23	0.22	0.20
3. crtRB1: 5′TE, Indel4, 3′TE	3	10	0.24	0.35	0.28	0.63	0.48	NS	0.23	0.71	0.60	0.50

*Names and symbols of polymorphic sites and their allelic variants are described in Table 2. **R² from combined ANOVA computed for each of the 3 haplotype scenarios across 2 years. NS, non-significant at alpha 0.5, the rest are significant at alpha < 0.0001. Abbreviation of carotenoids’ names described under Table 2 and 3.

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